Micro-satellite cluster enables a whole new class of missions for communications, remote sensing, and scientific research for both civilian and military purposes. Synchronizing the time of the satellites in a cluster is important for both cluster sensing capabilities and its autonomous operating. However, the existing time synchronization methods are not suitable for microsatellite cluster, because it requires too many human interventions and occupies too much ground control resource. Although, data post-process may realize the equivalent time synchronization, it requires processing time and powerful computing ability on the ground, which cannot be implemented by cluster itself. In order to autonomously establish and maintain the time benchmark in a cluster, we propose a compact time difference compensation system(TDCS), which is a kind of time control loop that dynamically adjusts the satellite reference frequency according to the time difference. Consequently, the time synchronization in the cluster can be autonomously achieved on-orbit by synchronizing the clock of other satellites to a chosen one's. The experimental result shows that the standard deviation of time synchronization is about 102 ps when the carrier to noise ratio(CNR) is 95 d BHz, and the standard deviation of corresponding frequency difference is approximately0.36 Hz.
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